.flake8
.gitignore
CHANGELOG.rst
LICENSE
MANIFEST.in
Makefile
README.rst
_tskitmodule.c
pytest.ini
setup.cfg
setup.py
stress_lowlevel.py
lib/.gitignore
lib/CHANGELOG.rst
lib/VERSION
lib/meson.build
lib/meson_options.txt
lib/tskit.h
lib/examples/Makefile
lib/examples/api_structure.c
lib/examples/cpp_sorting_example.cpp
lib/examples/error_handling.c
lib/examples/haploid_wright_fisher.c
lib/examples/streaming.c
lib/examples/tree_iteration.c
lib/examples/tree_traversal.c
lib/subprojects/kastore/README.md
lib/subprojects/kastore/VERSION
lib/subprojects/kastore/kastore.c
lib/subprojects/kastore/kastore.h
lib/subprojects/kastore/meson.build
lib/tests/test_convert.c
lib/tests/test_core.c
lib/tests/test_file_format.c
lib/tests/test_genotypes.c
lib/tests/test_haplotype_matching.c
lib/tests/test_minimal_cpp.cpp
lib/tests/test_stats.c
lib/tests/test_tables.c
lib/tests/test_trees.c
lib/tests/testlib.c
lib/tests/testlib.h
lib/tests/meson-subproject/example.c
lib/tests/meson-subproject/meson.build
lib/tskit/convert.c
lib/tskit/convert.h
lib/tskit/core.c
lib/tskit/core.h
lib/tskit/genotypes.c
lib/tskit/genotypes.h
lib/tskit/haplotype_matching.c
lib/tskit/haplotype_matching.h
lib/tskit/stats.c
lib/tskit/stats.h
lib/tskit/tables.c
lib/tskit/tables.h
lib/tskit/trees.c
lib/tskit/trees.h
lwt_interface/CHANGELOG.rst
lwt_interface/Makefile
lwt_interface/README.md
lwt_interface/dict_encoding_testlib.py
lwt_interface/example_c_module.c
lwt_interface/setup.py
lwt_interface/test_example_c_module.py
lwt_interface/tskit_lwt_interface.h
requirements/development.txt
requirements/development.yml
requirements/CI-complete/requirements.txt
requirements/CI-docs/requirements.txt
requirements/CI-tests-conda/requirements.txt
requirements/CI-tests-pip/requirements.txt
tests/__init__.py
tests/conftest.py
tests/ibd.py
tests/simplify.py
tests/test_avl_tree.py
tests/test_cli.py
tests/test_combinatorics.py
tests/test_dict_encoding.py
tests/test_drawing.py
tests/test_file_format.py
tests/test_fileobj.py
tests/test_genotypes.py
tests/test_haplotype_matching.py
tests/test_highlevel.py
tests/test_ibd.py
tests/test_lowlevel.py
tests/test_metadata.py
tests/test_ms.py
tests/test_parsimony.py
tests/test_phylo_formats.py
tests/test_provenance.py
tests/test_reference_sequence.py
tests/test_stats.py
tests/test_tables.py
tests/test_text_formats.py
tests/test_threads.py
tests/test_topology.py
tests/test_tree_stats.py
tests/test_util.py
tests/test_utilities.py
tests/test_vcf.py
tests/test_version.py
tests/test_wright_fisher.py
tests/tsutil.py
tests/data/SLiM/README
tests/data/SLiM/minimal-example.trees
tests/data/SLiM/minimal-example.txt
tests/data/SLiM/single-locus-example.trees
tests/data/SLiM/single-locus-example.txt
tests/data/dict-encodings/generate_msprime.py
tests/data/dict-encodings/msprime-0.7.4.pkl
tests/data/hdf5-formats/msprime-0.3.0_v2.0.hdf5
tests/data/hdf5-formats/msprime-0.4.0_v3.1.hdf5
tests/data/hdf5-formats/msprime-0.5.0_v10.0.hdf5
tests/data/old-formats/tskit-0.3.3.trees
tests/data/simplify-bugs/01-edges.txt
tests/data/simplify-bugs/01-mutations.txt
tests/data/simplify-bugs/01-nodes.txt
tests/data/simplify-bugs/01-sites.txt
tests/data/simplify-bugs/02-edges.txt
tests/data/simplify-bugs/02-mutations.txt
tests/data/simplify-bugs/02-nodes.txt
tests/data/simplify-bugs/02-sites.txt
tests/data/simplify-bugs/03-edges.txt
tests/data/simplify-bugs/03-mutations.txt
tests/data/simplify-bugs/03-nodes.txt
tests/data/simplify-bugs/03-sites.txt
tests/data/simplify-bugs/04-edges.txt
tests/data/simplify-bugs/04-mutations.txt
tests/data/simplify-bugs/04-nodes.txt
tests/data/simplify-bugs/04-sites.txt
tests/data/simplify-bugs/05-edges.txt
tests/data/simplify-bugs/05-mutations.txt
tests/data/simplify-bugs/05-nodes.txt
tests/data/simplify-bugs/05-sites.txt
tests/data/svg/internal_sample_ts.svg
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tskit/__init__.py
tskit/__main__.py
tskit/_version.py
tskit/cli.py
tskit/combinatorics.py
tskit/drawing.py
tskit/exceptions.py
tskit/formats.py
tskit/metadata.py
tskit/metadata_schema.schema.json
tskit/provenance.py
tskit/provenance.schema.json
tskit/stats.py
tskit/tables.py
tskit/text_formats.py
tskit/trees.py
tskit/util.py
tskit/vcf.py
tskit.egg-info/PKG-INFO
tskit.egg-info/SOURCES.txt
tskit.egg-info/dependency_links.txt
tskit.egg-info/entry_points.txt
tskit.egg-info/requires.txt
tskit.egg-info/top_level.txt